Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01005599.1 Corchorus olitorius cultivar O-4 contig05623, whole genome shotgun sequence

Parameters: 2 7 7 80 10 50 1000

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 773

Length: 1289
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35


Found at i:177 original size:5 final size:5

Alignment explanation


    Indices: 158--190  Score: 52
    Period size: 5  Copynumber: 7.0  Consensus size: 5

        148 CTGCTATCTT

                                                     
        158 TTATA -TATA -TATA TTATA TTATA TTATA TTATA
          1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA

        191 GTAATAAAAT


Statistics
Matches: 27,  Mismatches: 0, Indels: 2
        0.93            0.00        0.07

Matches are distributed among these distances:
   4    8  0.30
   5   19  0.70

ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58


Consensus pattern (5 bp):   
TTATA

Found at i:512 original size:30 final size:30

Alignment explanation


    Indices: 476--537  Score: 106
    Period size: 30  Copynumber: 2.1  Consensus size: 30

        466 ATTTTTATCT

                                   *      
        476 TGACTTTCCTCTTATACCCTCAATTTTTAA
          1 TGACTTTCCTCTTATACCCTCAAATTTTAA

                   *                      
        506 TGACTTTTCTCTTATACCCTCAAATTTTAA
          1 TGACTTTCCTCTTATACCCTCAAATTTTAA

              
        536 TG
          1 TG

        538 GCTTATTAAC


Statistics
Matches: 30,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  30   30  1.00

ACGTcount: A:0.24, C:0.24, G:0.05, T:0.47


Consensus pattern (30 bp):   
TGACTTTCCTCTTATACCCTCAAATTTTAA
Done.